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Analyzes chemical libraries by scaffold using Bemis-Murcko scaffolds, generic frameworks, cyclic skeletons, matched molecular pair (MMP) analysis via mmpdb, R-group decomposition, Free-Wilson analysis, scaffold hopping, and chemotype-aware ML train/test splits. Use when identifying chemotype clusters in a library, deriving SAR transformation rules, decomposing series into R-groups, performing scaffold-balanced QSAR splits, or planning analog campaigns.

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Process and analyze single-cell ATAC-seq data with Signac, ArchR, SnapATAC2, or Cell Ranger ATAC. Use when handling 10X scATAC or 10X Multiome (paired RNA+ATAC) data, performing per-cell QC, choosing between ArchR/Signac/SnapATAC2 ecosystems, building per-cluster consensus peaksets, integrating with paired scRNA-seq, doublet detection (AMULET vs ArchR vs scDblFinder), or running pseudobulk differential accessibility per cluster.

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Estimate causal effects of an exposure on an outcome from GWAS summary statistics using genetic instruments. Implements IVW (fixed/random), MR-Egger, weighted median/mode, MR-RAPS, CAUSE, GSMR-HEIDI, MR-PRESSO, MVMR, MR-Clust, LCV, and LHC-MR via TwoSampleMR, MendelianRandomization, MR-PRESSO, cause, and lhcMR. Use when testing causal direction between traits, evaluating drug-target effects via cis-pQTL/cis-eQTL, performing multivariable mediation MR, distinguishing causation from correlated horizontal pleiotropy, or producing STROBE-MR-compliant sensitivity batteries.

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Use Apple CryptoKit for Swift cryptographic primitives. Use when hashing with SHA-2 or SHA-3, generating HMACs, encrypting with AES-GCM or ChaChaPoly, signing with P256/P384/P521/Curve25519 or ML-DSA keys, performing ECDH, HPKE, ML-KEM, or X-Wing key exchange, using Secure Enclave CryptoKit keys, or migrating CommonCrypto code to CryptoKit.

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Implement, review, or improve CloudKit and iCloud sync in iOS/macOS apps. Use when working with CKContainer, CKRecord, CKQuery, CKSubscription, CKSyncEngine, CKShare, NSUbiquitousKeyValueStore, or iCloud Drive file coordination; when syncing SwiftData models via ModelConfiguration with cloudKitDatabase; when handling CKError codes for conflict resolution, network failures, or quota limits; or when checking iCloud account status before performing sync operations.

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Use this skill whenever the user wants to create, read, edit, or manipulate Word documents (.docx files) or Word templates (.dotx files). Triggers include: any mention of 'Word doc', 'word document', '.docx', '.dotx', or requests to produce professional documents with formatting like tables of contents, headings, page numbers, or letterheads. Also use when extracting or reorganizing content from .docx or .dotx files, inserting or replacing images in documents, performing find-and-replace in Word files, working with tracked changes or comments, or converting content into a polished Word document. If the user asks for a 'report', 'memo', 'letter', 'template', or similar deliverable as a Word or .docx file, use this skill. Do NOT use for PDFs, spreadsheets, Google Docs, or general coding tasks unrelated to document generation.

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Perform dynamic application security testing with OWASP ZAP, Burp Suite, and Nikto. Test running applications for security vulnerabilities through automated and manual testing. Use when testing web applications, APIs, or performing penetration testing.

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Scan systems and dependencies for CVEs and security vulnerabilities. Use tools like Nessus, OpenVAS, and Qualys to identify and prioritize vulnerabilities. Use when performing security assessments, compliance scanning, or vulnerability management.

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Transmit and capture RF waveforms using Wireless Testbench with NI USRP radios (X410, X310, N310, N320, N321, N300, X300, E320). Use when generating test signals, transmitting over the air, capturing IQ data, performing loopback tests, configuring multi-antenna setups, or troubleshooting dropped samples and gain settings. Covers basebandTransceiver, basebandTransmitter, basebandReceiver, continuous and once transmit modes, foreground and background capture, and UseRadioBuffer options. Also use when the user mentions transmit waveform, capture signal, IQ data, loopback, RF gain, sample rate, or antenna configuration.

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Reads from, writes to, and manages relational databases using MATLAB Database Toolbox. Use when connecting to databases, reading data with sqlread or fetch, filtering with rowfilter, writing with sqlwrite, updating with sqlupdate, executing SQL statements, managing transactions with commit and rollback, mapping MATLAB classes to tables with ORM (Mappable, ormread, ormwrite, ormupdate), or performing any database operation from MATLAB. Triggers on: database, SQL, sqlread, sqlwrite, sqlupdate, fetch, execute, rowfilter, RowFilter, ORM, Mappable, ormread, ormwrite, ormupdate, orm2sql, transaction, commit, rollback, Database Toolbox, PostgreSQL, MySQL, SQLite, SQL Server, Oracle, database connection, database table, query database, insert data, update rows, delete rows, stored procedure, prepared statement, odbc, databaseConnectionOptions, datasource, data source, DSN, connection string, multithreaded, parallel.

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Use this skill when fitting accelerated life models, computing mean time to failure (MTTF), B10 life and similar quantities, fitting life distributions like Weibull for reliability analysis, comparing distribution fits, computing confidence intervals on reliability quantities with bootstrapping, performing lifetime prediction, computing failure rates, plotting Kaplan-Meier curves, computing survival functions, or doing reliability analysis.

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E-commerce product description generator for any platform. Generates optimized titles, bullet points, descriptions, and backend keywords using competitor research + keyword scoring + FABE copywriting. Two modes: (A) Create — generate listing from product specs with optional competitor analysis, (B) Optimize — improve existing listing with keyword gap analysis. Supports Amazon, eBay, Walmart, Shopify, Etsy, TikTok Shop, Lazada, Shopee. No API key required. Use when: (1) writing a new product listing, (2) analyzing what makes competitors rank, (3) improving an underperforming listing.

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Run scoped or final cross-media consistency checks for mathematical-modeling artifacts, comparing canonical numbers, symbols, parameters, decisions, files, and paper claims without performing full-workspace audits for low-risk changes.

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Step-by-step guide for creating your own Claude Skills, from deciding whether a skill is the right tool to writing the SKILL.md file, structuring reference material, and making it trigger reliably. Use when you want to package a workflow, framework, or repeated task into a reusable Skill, when an existing skill is not triggering or not loading the right context, when you are auditing a skill that is underperforming, or when you want to publish a skill for others. Also triggers when someone asks "how do I make a skill" or "what makes a good skill". Useful for individuals, teams, and anyone publishing skills publicly.

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Audit existing content across a site to decide what to keep, update, merge, redirect, or delete. Use this skill whenever the user wants to audit existing content, fix content decay, resolve keyword cannibalization, prune underperforming pages, prioritize content updates, or apply a keep/update/merge/redirect/delete framework to a content library. Triggers on content audit, content decay, content refresh, cannibalization, keyword cannibalization, prune content, delete pages, redirect old pages, content inventory, what to keep, what to update, content scorecard, evergreen refresh. Also triggers when traffic is dropping site-wide and the cause might be content quality, even if 'audit' is not said explicitly.

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A discipline for running paid media that does not light money on fire. Hypothesis writing for paid spend, channel selection, budget allocation, audience targeting, bid strategy, campaign types, what NOT to spend on, attribution reality, and the failure modes that produce expensive lessons. Triggers on paid media strategy, ad budget allocation, channel selection, paid media plan, audit my Google Ads, audit my Meta Ads, scale paid media, kill underperforming campaign, paid media hypothesis, ad spend strategy, attribution reality, performance marketing strategy. Also triggers when a team is asking how to scale paid media, or whether to add a new channel, or how to reallocate spend across channels.

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Browser-based QA combining Chrome MCP control with Python analysis tools. Use when performing browser QA testing, visual regression tracking, WCAG accessibility auditing, performance profiling, or health-scoring web applications.

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Data analysis across SQL, visualization, statistics, and reporting. Use when writing SQL queries, building dashboards, performing cohort or funnel analysis, running hypothesis tests, or presenting data-driven recommendations.

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Risk-based vendor assessment framework for IT service providers, technology vendors, and third-party partners under DORA, NIS2, GDPR. Provides three-phase process (Initial Screening / Detailed Assessment / Final Evaluation), six-dimension risk scoring (Financial/Operational/Compliance/Security/Reputational/Strategic) with weighted matrices, full DORA Art. 28-30 contractual checklist, NIS2 Art. 21(2) security measures enumeration, GDPR Art. 28 documentation checks, red flags per dimension, trigger-based review criteria, and document templates. Use when: (1) Evaluating new vendors or technology providers, (2) Conducting critical ICT third-party due diligence under DORA, (3) Performing supply chain security assessment under NIS2, (4) Creating vendor onboarding documentation, (5) Establishing ongoing vendor monitoring, (6) Assessing concentration risk, or (7) Generating executive vendor risk reports.

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Provides basic utility functions for performing single-cell analyses, focusing on simple normalization, quality control and data transformations. Also provides some helper functions to assist development of other packages.

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Intuitive framework for identifying spatially variable genes (SVGs) via edgeR, a popular method for performing differential expression analyses. Based on pre-annotated spatial clusters as summarized spatial information, DESpace models gene expression using a negative binomial (NB), via edgeR, with spatial clusters as covariates. SVGs are then identified by testing the significance of spatial clusters. The method is flexible and robust, and is faster than the most SV methods. Furthermore, to the

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The BloodGen3Module package provides functions for R user performing module repertoire analyses and generating fingerprint representations. Functions can perform group comparison or individual sample analysis and visualization by fingerprint grid plot or fingerprint heatmap. Module repertoire analyses typically involve determining the percentage of the constitutive genes for each module that are significantly increased or decreased. As we describe in details;https://www.biorxiv.org/content/10.11

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performing all the steps of gene expression meta-analysis considering the possible existence of missing genes. It provides the necessary functions to be able to perform the different methods of gene expression meta-analysis. In addition, it contains functions to apply quality controls, download GEO datasets and show graphical representations of the results.

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Systematic 3D interaction calls and differential analysis for Hi-C and HiChIP. The HiC-DC+ (Hi-C/HiChIP direct caller plus) package enables principled statistical analysis of Hi-C and HiChIP data sets – including calling significant interactions within a single experiment and performing differential analysis between conditions given replicate experiments – to facilitate global integrative studies. HiC-DC+ estimates significant interactions in a Hi-C or HiChIP experiment directly from the raw con

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